Table 5 Significant (q < 0.30) direct and indirect SNP effects, their location, minor allele frequency (MAF), and estimated effect size α, based on model STM
Effect | Cross | SNP | Chr | Position (kbp) | MAF | α (days) | q-value | V (days2) | % of \(\sigma_{P}^{2}\) explained | % of \(\sigma_{{A_{T} }}^{2}\) explained |
|---|---|---|---|---|---|---|---|---|---|---|
Direct | W1 * WA | rs317294317 | 2 | 88,120 | 0.34 | 22 ± 5 | 0.29 | 209 | 2.7 | 36.3 |
Direct | W1 * WB | rs313098101 | 2 | 8799 | 0.32 | 20 ± 5 | 0.16 | 167 | 1.5 | 11.8 |
rs31610924 | 5 | 54,321 | 0.35 | 16 ± 4 | 0.06 | 122 | 1.1 | 8.6 | ||
rs312488612 | 7 | 5646 | 0.47 | 35 ± 8 | 0.05 | 627 | 5.8 | 44.3 | ||
rs14677635 | 9 | 17,018 | 0.22 | 26 ± 6 | 0.28 | 229 | 2.1 | 16.2 |